sbaij/mpi/sbaijov.c

/*$Id: sbaijov.c,v 1.65 2001/08/06 21:15:42 bsmith Exp $*/

/*
   Routines to compute overlapping regions of a parallel MPI matrix.
   Used for finding submatrices that were shared across processors.
*/
#include "src/mat/impls/sbaij/mpi/mpisbaij.h"
#include "petscbt.h"

static int MatIncreaseOverlap_MPISBAIJ_Once(Mat,int,IS *);
static int MatIncreaseOverlap_MPISBAIJ_Local(Mat,int *,int,int **,PetscBT*);

#undef __FUNCT__
#define __FUNCT__ "MatIncreaseOverlap_MPISBAIJ"
int MatIncreaseOverlap_MPISBAIJ(Mat C,int is_max,IS is[],int ov)
{
  Mat_MPISBAIJ  *c = (Mat_MPISBAIJ*)C->data;
  int           i,ierr,N=C->N, bs=c->bs;
  IS            *is_new;

  PetscFunctionBegin;
  ierr = PetscMalloc(is_max*sizeof(IS),&is_new);CHKERRQ(ierr);
  /* Convert the indices into block format */
  ierr = ISCompressIndicesGeneral(N,bs,is_max,is,is_new);CHKERRQ(ierr);
  if (ov < 0){ SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Negative overlap specified\n");}
  for (i=0; i<ov; ++i) {
    ierr = MatIncreaseOverlap_MPISBAIJ_Once(C,is_max,is_new);CHKERRQ(ierr);
  }
  for (i=0; i<is_max; i++) {ierr = ISDestroy(is[i]);CHKERRQ(ierr);}
  ierr = ISExpandIndicesGeneral(N,bs,is_max,is_new,is);CHKERRQ(ierr);
  for (i=0; i<is_max; i++) {ierr = ISDestroy(is_new[i]);CHKERRQ(ierr);}
  ierr = PetscFree(is_new);CHKERRQ(ierr);
  PetscFunctionReturn(0);
}

typedef enum {MINE,OTHER} WhoseOwner;
/*  data1, odata1 and odata2 are packed in the format (for communication):
       data[0]          = is_max, no of is
       data[1]          = size of is[0]
        ...
       data[is_max]     = size of is[is_max-1]
       data[is_max + 1] = data(is[0])
        ...
       data[is_max+1+sum(size of is[k]), k=0,...,i-1] = data(is[i])
        ...
   data2 is packed in the format (for creating output is[]):
       data[0]          = is_max, no of is
       data[1]          = size of is[0]
        ...
       data[is_max]     = size of is[is_max-1]
       data[is_max + 1] = data(is[0])
        ...
       data[is_max + 1 + Mbs*i) = data(is[i])
        ...
*/
#undef USEBcol /* not working yet! e.g., mpirun -np 3 ex92 -mat_size 100 -nd 1 (02/24/2004) */
#undef __FUNCT__
#define __FUNCT__ "MatIncreaseOverlap_MPISBAIJ_Once"
static int MatIncreaseOverlap_MPISBAIJ_Once(Mat C,int is_max,IS is[])
{
  Mat_MPISBAIJ  *c = (Mat_MPISBAIJ*)C->data;
  int         len,idx,*idx_i,isz,col,*n,*data1,**data1_start,*data2,*data2_i,*data,*data_i,
              size,rank,Mbs,i,j,k,ierr,nrqs,*odata1,*odata2,
              tag1,tag2,flag,proc_id,**odata2_ptr,waits_idx,*ctable=0,*btable,len_b;
  int         nrqr,*id_r1,*len_r1,proc_end,*iwork,*len_s,*data1_i;
  char        *t_p;
  MPI_Comm    comm;
  MPI_Request *s_waits1,*s_waits2,r_req,*r_waits1;
  MPI_Status  *s_status,r_status;
  PetscBT     *table=0;  /* mark indices of this processor's is[] */
  PetscBT     table_i;
  PetscBT     otable; /* mark indices of other processors' is[] */

  PetscFunctionBegin;

  comm = C->comm;
  size = c->size;
  rank = c->rank;
  Mbs  = c->Mbs;

  ierr = PetscObjectGetNewTag((PetscObject)C,&tag1);CHKERRQ(ierr);
  ierr = PetscObjectGetNewTag((PetscObject)C,&tag2);CHKERRQ(ierr);

  /* 1. Send this processor's is[] to other processors */
  /*---------------------------------------------------*/
  ierr = PetscMalloc(is_max*sizeof(int),&n);CHKERRQ(ierr);
  len = 0;
  for (i=0; i<is_max; i++) {
    ierr = ISGetLocalSize(is[i],&n[i]);CHKERRQ(ierr);
    len += n[i];
  }
  if (len == 0) {
    is_max = 0;
  } else {
    len += 1 + is_max; /* max length of data1 for one processor */
  }
  /* ierr = PetscPrintf(PETSC_COMM_SELF, " [%d] len=%d, is_max: %d\n",rank,len,is_max); */

  ierr   = PetscMalloc(size*3*sizeof(int),&len_s);CHKERRQ(ierr);
  btable = len_s + size;
  iwork  = btable + size;

  ierr = PetscMalloc((size*len+1)*sizeof(int),&data1);CHKERRQ(ierr);
  ierr = PetscMalloc(size*sizeof(int*),&data1_start);CHKERRQ(ierr);
  for (i=0; i<size; i++) data1_start[i] = data1 + i*len;

  if (is_max){
    /* create hash table ctable which maps c->row to proc_id) */
    ierr = PetscMalloc(Mbs*sizeof(int),&ctable);CHKERRQ(ierr);
    for (proc_id=0,j=0; proc_id<size; proc_id++) {
      for (; j<c->rowners[proc_id+1]; j++) {
        ctable[j] = proc_id;
      }
    }

    /* create tables for marking indices */
    len_b = is_max*sizeof(PetscBT) + (Mbs/PETSC_BITS_PER_BYTE+1)*is_max*sizeof(char) + 1;
    ierr = PetscMalloc(len_b,&table);CHKERRQ(ierr);
    t_p  = (char *)(table + is_max);
    for (i=0; i<is_max; i++) {
      table[i]  = t_p  + (Mbs/PETSC_BITS_PER_BYTE+1)*i;
    }

#ifdef USEBcol
    Vec        vfrom_mpi,vto_seq;
    int        bs=c->bs,Bn = c->B->n,Bnbs = Bn/bs,N,low,*Bowners;
    PetscScalar garray[Bnbs],*array;
#ifdef NEW
    IS is_local,is_gl;
    ierr = ISCreateGeneral(comm,Bnbs,c->garray,&is_local);CHKERRQ(ierr);
    ierr = ISAllGather(is_local, &is_gl);CHKERRQ(ierr);
    if (rank == 1){
      ierr = ISView(is_gl,PETSC_VIEWER_STDOUT_SELF);CHKERRQ(ierr);
    }
    ierr = ISDestroy(is_gl);
    ierr = ISDestroy(is_local);

#endif /* NEW */
    /* create vfrom_mpi, a mpi vector holding local B->garray */
    for (i=0; i<Bnbs; i++) garray[i] = c->garray[i];
    ierr = VecCreateMPIWithArray(comm,Bnbs,PETSC_DECIDE,garray,&vfrom_mpi);CHKERRQ(ierr);

    /* create vto_seq, a seq vector for holding B->garray of all processors */
    ierr = VecGetSize(vfrom_mpi,&N);CHKERRQ(ierr);
    ierr = VecGetOwnershipRange(vfrom_mpi,&low,PETSC_NULL);CHKERRQ(ierr);

    ierr = PetscMalloc((size+1)*sizeof(int),&Bowners);CHKERRQ(ierr);
    ierr = MPI_Allgather(&low,1,MPI_INT,Bowners,1,MPI_INT,comm);CHKERRQ(ierr);
    Bowners[size] = N;
    ierr = VecConvertMPIToSeqAll(vfrom_mpi,&vto_seq);CHKERRQ(ierr);

    if (rank == 0){
      /* ierr = VecView(vto_seq,PETSC_VIEWER_STDOUT_SELF);CHKERRQ(ierr); */
      for (i = 0; i<=size; i++){
        ierr = PetscPrintf(PETSC_COMM_SELF," Bowners[%d]=%d, N=%d\n",i,Bowners[i],N);
      }
    }
    ierr = VecDestroy(vfrom_mpi);CHKERRQ(ierr);
#endif

#ifdef USEBcol
    /* hash table table_i[idx] = 1 if idx is an index of one of the is[] array
                               = 0 otherwise */
    table_i = table[0];
    ierr    = PetscBTMemzero(Mbs,table_i);CHKERRQ(ierr);
    for (i=0; i<is_max; i++){
      ierr = ISGetIndices(is[i],&idx_i);CHKERRQ(ierr);
      for (j=0; j<n[i]; j++){
        idx = idx_i[j];
        ierr = PetscBTSet(table_i,idx);CHKERRQ(ierr);
      }
      ierr = ISRestoreIndices(is[i],&idx_i);CHKERRQ(ierr);
    }

    ierr = VecGetArray(vto_seq,&array);
    for (i=0; i<size; i++){
      btable[i] = 0;
      for (j = Bowners[i]; j<Bowners[i+1]; j++){ /* go through B cols */
        idx = (int)array[j];
        if(PetscBTLookup(table_i,idx)){
          btable[i] = 1;
          break;
        }
      }

      if (!btable[i]){ /* go through A cols */
        for (j = c->rowners[i]; j<c->rowners[i+1]; j++){
          if(PetscBTLookup(table_i,j)){
            btable[i] = 1;
            break;
          }
        }
      }
    }
    if (rank == 1){
      for (i=0; i<size; i++) printf(" %d\n",btable[i]);
    }
    ierr = VecRestoreArray(vto_seq,&array);CHKERRQ(ierr);
    ierr = PetscFree(Bowners);CHKERRQ(ierr);
    ierr = VecDestroy(vto_seq);CHKERRQ(ierr);
#endif
  } /* if (is_max) */

  /* evaluate communication - mesg to who, length, and buffer space */
  for (i=0; i<size; i++) {
    len_s[i] = 0;
  }

  /* header of data1 */
  for (proc_id=0; proc_id<size; proc_id++){
    iwork[proc_id] = 0;
    *data1_start[proc_id] = is_max;
    data1_start[proc_id]++;
    for (j=0; j<is_max; j++) {
      if (proc_id == rank){
        *data1_start[proc_id] = n[j];
      } else {
        *data1_start[proc_id] = 0;
      }
      data1_start[proc_id]++;
    }
  }

  for (i=0; i<is_max; i++) {
    ierr = ISGetIndices(is[i],&idx_i);CHKERRQ(ierr);
    ierr = PetscSortInt(n[i],idx_i);CHKERRQ(ierr);
    for (j=0; j<n[i]; j++){
      idx = idx_i[j];
      *data1_start[rank] = idx; data1_start[rank]++; /* for local proccessing */
      proc_end = ctable[idx];
      for (proc_id=0;  proc_id<=proc_end; proc_id++){ /* for others to process */
        if (proc_id != rank ){
#ifdef USEBcol
          if ( (proc_id < proc_end && btable[proc_id]) || proc_id == proc_end){
#endif
            *data1_start[proc_id] = idx; data1_start[proc_id]++;
            len_s[proc_id]++;
#ifdef USEBcol
          }
#endif
        }
      }
    }

    /* update header data */
    for (proc_id=0; proc_id<=proc_end; proc_id++){
      if (proc_id== rank) continue;
      *(data1 + proc_id*len + 1 + i) = len_s[proc_id] - iwork[proc_id];
      iwork[proc_id] = len_s[proc_id] ;
    }

    ierr = ISRestoreIndices(is[i],&idx_i);CHKERRQ(ierr);
  } /* for (i=0; i<is_max; i++) */

  nrqs = 0; nrqr = 0;
  for (i=0; i<size; i++){
    data1_start[i] = data1 + i*len;
    if (len_s[i]){
      nrqs++;
      len_s[i] += 1 + is_max; /* add no. of header msg */
    }
  }

  for (i=0; i<is_max; i++) {
    ierr = ISDestroy(is[i]);CHKERRQ(ierr);
  }
  ierr = PetscFree(n);CHKERRQ(ierr);
  if (ctable){ierr = PetscFree(ctable);CHKERRQ(ierr);}

  /* Determine the number of messages to expect, their lengths, from from-ids */
  ierr = PetscGatherNumberOfMessages(comm,PETSC_NULL,len_s,&nrqr);CHKERRQ(ierr);
  ierr = PetscGatherMessageLengths(comm,nrqs,nrqr,len_s,&id_r1,&len_r1);CHKERRQ(ierr);
  /* ierr = PetscPrintf(PETSC_COMM_SELF, "[%d] nrqs: %d, nrqr: %d\n",rank,nrqs,nrqr); */

  /*  Now  post the sends */
  ierr = PetscMalloc(2*size*sizeof(MPI_Request),&s_waits1);CHKERRQ(ierr);
  s_waits2 = s_waits1 + size;
  k = 0;
  for (proc_id=0; proc_id<size; proc_id++){  /* send data1 to processor [proc_id] */
    if (len_s[proc_id]){
      ierr = MPI_Isend(data1_start[proc_id],len_s[proc_id],MPI_INT,proc_id,tag1,comm,s_waits1+k);CHKERRQ(ierr);
      k++;
    }
  }
  ierr = PetscFree(data1_start);CHKERRQ(ierr);

  /* 2. Do local work on this processor's is[] */
  /*-------------------------------------------*/
  ierr = PetscBTCreate(Mbs,otable);CHKERRQ(ierr);
  ierr = MatIncreaseOverlap_MPISBAIJ_Local(C,data1,MINE,&data,table);CHKERRQ(ierr);

  /* 3. Receive other's is[] and process. Then send back */
  /*-----------------------------------------------------*/
  len = 0;
  for (i=0; i<nrqr; i++){
    if (len_r1[i] > len)len = len_r1[i];
    /* ierr = PetscPrintf(PETSC_COMM_SELF, "[%d] expect to recv len=%d from [%d]\n",rank,len_r1[i],id_r1[i]); */
  }
  ierr = PetscMalloc((len+1)*sizeof(int),&odata1);CHKERRQ(ierr);
  ierr = PetscMalloc(size*sizeof(int**),&odata2_ptr);CHKERRQ(ierr);
  k = 0;
  while (k < nrqr){
    /* Receive messages */
    ierr = MPI_Iprobe(MPI_ANY_SOURCE,tag1,comm,&flag,&r_status);CHKERRQ(ierr);
    if (flag){
      ierr = MPI_Get_count(&r_status,MPI_INT,&len);CHKERRQ(ierr);
      proc_id = r_status.MPI_SOURCE;
      ierr = MPI_Irecv(odata1,len,MPI_INT,proc_id,r_status.MPI_TAG,comm,&r_req);CHKERRQ(ierr);
      ierr = MPI_Wait(&r_req,&r_status);CHKERRQ(ierr);
      /* ierr = PetscPrintf(PETSC_COMM_SELF, " [%d] recv %d from [%d]\n",rank,len,proc_id); */

      /*  Process messages */
      ierr = MatIncreaseOverlap_MPISBAIJ_Local(C,odata1,OTHER,&odata2_ptr[k],&otable);CHKERRQ(ierr);
      odata2 = odata2_ptr[k];
      len = 1 + odata2[0];
      for (i=0; i<odata2[0]; i++){
        len += odata2[1 + i];
      }

      /* Send messages back */
      ierr = MPI_Isend(odata2,len,MPI_INT,proc_id,tag2,comm,s_waits2+k);CHKERRQ(ierr);
      /* ierr = PetscPrintf(PETSC_COMM_SELF," [%d] send %d back to [%d] \n",rank,len,proc_id); */
      k++;
    }
  }
  ierr = PetscFree(odata1);CHKERRQ(ierr);

  /* 4. Receive work done on other processors, then merge */
  /*--------------------------------------------------------*/
  /* Allocate memory for incoming data */
  len = (1+is_max*(Mbs+1));
  ierr = PetscMalloc(len*sizeof(int),&data2);CHKERRQ(ierr);

  k = 0;
  while (k < nrqs){
    /* Receive messages */
    ierr = MPI_Iprobe(MPI_ANY_SOURCE,tag2,comm,&flag,&r_status);
    if (flag){
      ierr = MPI_Get_count(&r_status,MPI_INT,&len);CHKERRQ(ierr);
      proc_id = r_status.MPI_SOURCE;
      ierr = MPI_Irecv(data2,len,MPI_INT,proc_id,r_status.MPI_TAG,comm,&r_req);CHKERRQ(ierr);
      ierr = MPI_Wait(&r_req,&r_status);CHKERRQ(ierr);
      /* ierr = PetscPrintf(PETSC_COMM_SELF," [%d] recv %d from [%d], data2:\n",rank,len,proc_id); */
      if (len > 1+is_max){ /* Add data2 into data */
        data2_i = data2 + 1 + is_max;
        for (i=0; i<is_max; i++){
          table_i = table[i];
          data_i  = data + 1 + is_max + Mbs*i;
          isz     = data[1+i];
          for (j=0; j<data2[1+i]; j++){
            col = data2_i[j];
            if (!PetscBTLookupSet(table_i,col)) {data_i[isz++] = col;}
          }
          data[1+i] = isz;
          if (i < is_max - 1) data2_i += data2[1+i];
        }
      }
      k++;
    }
  }

  /* phase 1 sends are complete */
  ierr = PetscMalloc(size*sizeof(MPI_Status),&s_status);CHKERRQ(ierr);
  if (nrqs){
    ierr = MPI_Waitall(nrqs,s_waits1,s_status);CHKERRQ(ierr);
  }
  ierr = PetscFree(data1);CHKERRQ(ierr);

  /* phase 3 sends are complete */
  if (nrqr){
    ierr = MPI_Waitall(nrqr,s_waits2,s_status);CHKERRQ(ierr);
  }
  for (k=0; k<nrqr; k++){
    ierr = PetscFree(odata2_ptr[k]);CHKERRQ(ierr);
  }
  ierr = PetscFree(odata2_ptr);CHKERRQ(ierr);

  /* 5. Create new is[] */
  /*--------------------*/
  for (i=0; i<is_max; i++) {
    data_i = data + 1 + is_max + Mbs*i;
    ierr = ISCreateGeneral(PETSC_COMM_SELF,data[1+i],data_i,is+i);CHKERRQ(ierr);
  }

  ierr = PetscFree(data2);CHKERRQ(ierr);
  ierr = PetscFree(data);CHKERRQ(ierr);
  ierr = PetscFree(s_waits1);CHKERRQ(ierr);
  ierr = PetscFree(s_status);CHKERRQ(ierr);
  if (table) {ierr = PetscFree(table);CHKERRQ(ierr);}
  ierr = PetscBTDestroy(otable);CHKERRQ(ierr);

  ierr = PetscFree(len_s);CHKERRQ(ierr);
  ierr = PetscFree(id_r1);CHKERRQ(ierr);
  ierr = PetscFree(len_r1);CHKERRQ(ierr);

  PetscFunctionReturn(0);
}

#undef __FUNCT__
#define __FUNCT__ "MatIncreaseOverlap_MPISBAIJ_Local"
/*
   MatIncreaseOverlap_MPISBAIJ_Local - Called by MatIncreaseOverlap, to do
       the work on the local processor.

     Inputs:
      C      - MAT_MPISBAIJ;
      data   - holds is[]. See MatIncreaseOverlap_MPISBAIJ_Once() for the format.
      whose  - whose is[] to be processed,
               MINE:  this processor's is[]
               OTHER: other processor's is[]
     Output:
       data_new  - whose = MINE:
                     holds input and newly found indices in the same format as data
                   whose = OTHER:
                     only holds the newly found indices
       table     - table[i]: mark the indices of is[i], i=0,...,is_max. Used only in the case 'whose=MINE'.
*/
static int MatIncreaseOverlap_MPISBAIJ_Local(Mat C,int *data,int whose,int **data_new,PetscBT *table)
{
  Mat_MPISBAIJ *c = (Mat_MPISBAIJ*)C->data;
  Mat_SeqSBAIJ *a = (Mat_SeqSBAIJ*)(c->A)->data;
  Mat_SeqBAIJ  *b = (Mat_SeqBAIJ*)(c->B)->data;
  int          ierr,row,mbs,Mbs,*nidx,*nidx_i,col,isz,isz0,*ai,*aj,*bi,*bj,*garray,rstart,l;
  int          a_start,a_end,b_start,b_end,i,j,k,is_max,*idx_i,n;
  PetscBT      table0;  /* mark the indices of input is[] for look up */
  PetscBT      table_i; /* poits to i-th table. When whose=OTHER, a single table is used for all is[] */

  PetscFunctionBegin;
  Mbs = c->Mbs; mbs = a->mbs;
  ai = a->i; aj = a->j;
  bi = b->i; bj = b->j;
  garray = c->garray;
  rstart = c->rstart;
  is_max = data[0];

  ierr = PetscBTCreate(Mbs,table0);CHKERRQ(ierr);

  ierr = PetscMalloc((1+is_max*(Mbs+1))*sizeof(int),&nidx);CHKERRQ(ierr);
  nidx[0] = is_max;

  idx_i  = data + is_max + 1; /* ptr to input is[0] array */
  nidx_i = nidx + is_max + 1; /* ptr to output is[0] array */
  for (i=0; i<is_max; i++) { /* for each is */
    isz  = 0;
    n = data[1+i]; /* size of input is[i] */

    /* initialize table_i, set table0 */
    if (whose == MINE){ /* process this processor's is[] */
      table_i = table[i];
      nidx_i  = nidx + 1+ is_max + Mbs*i;
    } else {            /* process other processor's is[] - only use one temp table */
      table_i = *table;
    }
    ierr = PetscBTMemzero(Mbs,table_i);CHKERRQ(ierr);
    ierr = PetscBTMemzero(Mbs,table0);CHKERRQ(ierr);
    if (n > 0) {
      isz0 = 0;
      for (j=0; j<n; j++){
        col = idx_i[j];
        if (col >= Mbs) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"index col %d >= Mbs %d",col,Mbs);
        if(!PetscBTLookupSet(table_i,col)) {
          ierr = PetscBTSet(table0,col);CHKERRQ(ierr);
          if (whose == MINE) {nidx_i[isz0] = col;}
          isz0++;
        }
      }

      if (whose == MINE) {isz = isz0;}
      k = 0;  /* no. of indices from input is[i] that have been examined */
      for (row=0; row<mbs; row++){
        a_start = ai[row]; a_end = ai[row+1];
        b_start = bi[row]; b_end = bi[row+1];
        if (PetscBTLookup(table0,row+rstart)){ /* row is on input is[i]:
           do row search: collect all col in this row */
          for (l = a_start; l<a_end ; l++){ /* Amat */
            col = aj[l] + rstart;
            if (!PetscBTLookupSet(table_i,col)) {nidx_i[isz++] = col;}
          }
          for (l = b_start; l<b_end ; l++){ /* Bmat */
            col = garray[bj[l]];
            if (!PetscBTLookupSet(table_i,col)) {nidx_i[isz++] = col;}
          }
          k++;
          if (k >= isz0) break; /* for (row=0; row<mbs; row++) */
        } else { /* row is not on input is[i]:
          do col serach: add row onto nidx_i if there is a col in nidx_i */
          for (l = a_start; l<a_end ; l++){ /* Amat */
            col = aj[l] + rstart;
            if (PetscBTLookup(table0,col)){
              if (!PetscBTLookupSet(table_i,row+rstart)) {nidx_i[isz++] = row+rstart;}
              break; /* for l = start; l<end ; l++) */
            }
          }
          for (l = b_start; l<b_end ; l++){ /* Bmat */
            col = garray[bj[l]];
            if (PetscBTLookup(table0,col)){
              if (!PetscBTLookupSet(table_i,row+rstart)) {nidx_i[isz++] = row+rstart;}
              break; /* for l = start; l<end ; l++) */
            }
          }
        }
      }
    } /* if (n > 0) */

    if (i < is_max - 1){
      idx_i  += n;   /* ptr to input is[i+1] array */
      nidx_i += isz; /* ptr to output is[i+1] array */
    }
    nidx[1+i] = isz; /* size of new is[i] */
  } /* for each is */
  *data_new = nidx;
  ierr = PetscBTDestroy(table0);CHKERRQ(ierr);

  PetscFunctionReturn(0);
}